-
2
-
-
84859187710
-
On Parameter Synthesis by Parallel Model Checking
-
Barnat, J., Brim, L., Krejci, A., Streck, A., Safranek, D., Vejnar, M., Vejpustek, T.: On Parameter Synthesis by Parallel Model Checking. IEEE/ACM Transactions on Computational Biology and Bioinformatics 9(3), 693-705 (2012)
-
(2012)
IEEE/ACM Transactions on Computational Biology and Bioinformatics
, vol.9
, Issue.3
, pp. 693-705
-
-
Barnat, J.1
Brim, L.2
Krejci, A.3
Streck, A.4
Safranek, D.5
Vejnar, M.6
Vejpustek, T.7
-
3
-
-
77956603134
-
Efficient parameter search for qualitative models of regulatory networks using symbolic model checking
-
Batt, G., Page, M., Cantone, I., Goessler, G., Monteiro, P., de Jong, H.: Efficient parameter search for qualitative models of regulatory networks using symbolic model checking. Bioinformatics 26(18), i603-i610 (2010)
-
(2010)
Bioinformatics
, vol.26
, Issue.18
-
-
Batt, G.1
Page, M.2
Cantone, I.3
Goessler, G.4
Monteiro, P.5
De Jong, H.6
-
4
-
-
3042693879
-
Application of formal methods to biological regulatory networks: Extending Thomas' asynchronous logical approach with temporal logic
-
Bernot, G., Comet, J.-P., Richard, A., Guespin, J.: Application of formal methods to biological regulatory networks: Extending Thomas' asynchronous logical approach with temporal logic. Journal of Theoretical Biology 229(3), 339-347 (2004)
-
(2004)
Journal of Theoretical Biology
, vol.229
, Issue.3
, pp. 339-347
-
-
Bernot, G.1
Comet, J.-P.2
Richard, A.3
Guespin, J.4
-
5
-
-
27544505428
-
Qualitative Analysis of Regulatory Graphs: A Computational Tool Based on a Discrete Formal Framework
-
Benvenuti, L., De Santis, A., Farina, L. (eds.) Positive Systems. Springer, Heidelberg
-
Chaouiya, C., Remy, E., Mossé, B., Thieffry, D.: Qualitative Analysis of Regulatory Graphs: A Computational Tool Based on a Discrete Formal Framework. In: Benvenuti, L., De Santis, A., Farina, L. (eds.) Positive Systems. LNCIS, vol. 294, pp. 119-126. Springer, Heidelberg (2003)
-
(2003)
LNCIS
, vol.294
, pp. 119-126
-
-
Chaouiya, C.1
Remy, E.2
Mossé, B.3
Thieffry, D.4
-
6
-
-
38449101120
-
Integration of biological networks and gene expression data using Cytoscape
-
Cline, M., et al.: Integration of biological networks and gene expression data using Cytoscape. Nat. Protocols 2(10), 2366-2382 (2007)
-
(2007)
Nat. Protocols
, vol.2
, Issue.10
, pp. 2366-2382
-
-
Cline, M.1
-
7
-
-
84859111650
-
Automatic Inference of Regulatory and Dynamical Properties from Incomplete Gene Interaction and Expression Data
-
Lones, M.A., Smith, S.L., Teichmann, S., Naef, F., Walker, J.A., Trefzer, M.A. (eds.) IPCAT 2012. Springer, Heidelberg
-
Corblin, F., Fanchon, E., Trilling, L., Chaouiya, C., Thieffry, D.: Automatic Inference of Regulatory and Dynamical Properties from Incomplete Gene Interaction and Expression Data. In: Lones, M.A., Smith, S.L., Teichmann, S., Naef, F., Walker, J.A., Trefzer, M.A. (eds.) IPCAT 2012. LNCS, vol. 7223, pp. 25-30. Springer, Heidelberg (2012)
-
(2012)
LNCS
, vol.7223
, pp. 25-30
-
-
Corblin, F.1
Fanchon, E.2
Trilling, L.3
Chaouiya, C.4
Thieffry, D.5
-
8
-
-
70349998708
-
A declarative constraint-based method for analyzing discrete genetic regulatory networks
-
Corblin, F., et al.: A declarative constraint-based method for analyzing discrete genetic regulatory networks. Biosystems 98(2), 91-104 (2009)
-
(2009)
Biosystems
, vol.98
, Issue.2
, pp. 91-104
-
-
Corblin, F.1
-
9
-
-
0036207347
-
Modeling and Simulation of Genetic Regulatory Systems: A Literature Review
-
de Jong, H.: Modeling and Simulation of Genetic Regulatory Systems: A Literature Review. Journal of Computational Biology 9(1), 67-103 (2002)
-
(2002)
Journal of Computational Biology
, vol.9
, Issue.1
, pp. 67-103
-
-
De Jong, H.1
-
10
-
-
33747874092
-
Dynamical analysis of a generic boolean model for the control of the mammalian cell cycle
-
Fauré, A., Naldi, A., Chaouiya, C., Thieffry, D.: Dynamical analysis of a generic boolean model for the control of the mammalian cell cycle. In: ISMB (Supplement of Bioinformatics) 2006, pp. 124-131 (2006)
-
(2006)
ISMB (Supplement of Bioinformatics)
, vol.2006
, pp. 124-131
-
-
Fauré, A.1
Naldi, A.2
Chaouiya, C.3
Thieffry, D.4
-
11
-
-
41149165188
-
Emergent decision-making in biological signal transduction networks
-
Helikar, T., Konvalina, J., Heidel, J., Rogers, J.A.: Emergent decision-making in biological signal transduction networks. Proceedings of the National Academy of Sciences 105(6), 1913-1918 (2008)
-
(2008)
Proceedings of the National Academy of Sciences
, vol.105
, Issue.6
, pp. 1913-1918
-
-
Helikar, T.1
Konvalina, J.2
Heidel, J.3
Rogers, J.A.4
-
13
-
-
84867885724
-
-
Technical Report FIMU-RS-2012-03, Masaryk University
-
Klarner, H., Streck, A., Safranek, D., Kolcak, J., Siebert, H.: Parameter identification and model ranking of Thomas networks. Technical Report FIMU-RS-2012-03, Masaryk University (2012)
-
(2012)
Parameter Identification and Model Ranking of Thomas Networks
-
-
Klarner, H.1
Streck, A.2
Safranek, D.3
Kolcak, J.4
Siebert, H.5
-
14
-
-
65349156814
-
A discrete approach to top-down modeling of biochemical networks
-
Kriete, A., Eils, R. (eds.) Elsevier Academic Press
-
Laubenbacher, R., Mendes, P.: A discrete approach to top-down modeling of biochemical networks. In: Kriete, A., Eils, R. (eds.) Computational Systems Biology, pp. 229-247. Elsevier Academic Press (2005)
-
(2005)
Computational Systems Biology
, pp. 229-247
-
-
Laubenbacher, R.1
Mendes, P.2
-
15
-
-
67449095889
-
Computational methods for discovering gene networks from expression data
-
Lee, W.-P., Tzou, W.-S.: Computational methods for discovering gene networks from expression data. Briefings in Bioinformatics 10(4), 408-423 (2009)
-
(2009)
Briefings in Bioinformatics
, vol.10
, Issue.4
, pp. 408-423
-
-
Lee, W.-P.1
Tzou, W.-S.2
-
16
-
-
79953226975
-
Dynamically consistent reduction of logical regulatory graphs
-
Naldi, A., Remy, E., Thieffry, D., Chaouiya, C.: Dynamically consistent reduction of logical regulatory graphs. Theor. Comput. Sci. 412(21), 2207-2218 (2011)
-
(2011)
Theor. Comput. Sci.
, vol.412
, Issue.21
, pp. 2207-2218
-
-
Naldi, A.1
Remy, E.2
Thieffry, D.3
Chaouiya, C.4
-
18
-
-
0035928464
-
A logical analysis of the drosophila gap-gene system
-
Sánchez, L., Thieffry, D.: A logical analysis of the drosophila gap-gene system. Journal of Theoretical Biology 211(2), 115-141 (2001)
-
(2001)
Journal of Theoretical Biology
, vol.211
, Issue.2
, pp. 115-141
-
-
Sánchez, L.1
Thieffry, D.2
-
19
-
-
33845198572
-
Incorporating Time Delays into the Logical Analysis of Gene Regulatory Networks
-
Priami, C. (ed.) CMSB 2006. Springer, Heidelberg
-
Siebert, H., Bockmayr, A.: Incorporating Time Delays into the Logical Analysis of Gene Regulatory Networks. In: Priami, C. (ed.) CMSB 2006. LNCS (LNBI), vol. 4210, pp. 169-183. Springer, Heidelberg (2006)
-
(2006)
LNCS (LNBI)
, vol.4210
, pp. 169-183
-
-
Siebert, H.1
Bockmayr, A.2
-
20
-
-
0029267492
-
Dynamical behaviour of biological regulatory networks II. Immunity control in bacteriophage lambda
-
Thieffry, D., Thomas, R.: Dynamical behaviour of biological regulatory networks II. Immunity control in bacteriophage lambda. Bulletin of Mathematical Biology 57, 277-297 (1995)
-
(1995)
Bulletin of Mathematical Biology
, vol.57
, pp. 277-297
-
-
Thieffry, D.1
Thomas, R.2
-
21
-
-
0025948178
-
Regulatory networks seen as asynchronous automata: A logical description
-
Thomas, R.: Regulatory networks seen as asynchronous automata: A logical description. Journal of Theoretical Biology 153(1), 1-23 (1991)
-
(1991)
Journal of Theoretical Biology
, vol.153
, Issue.1
, pp. 1-23
-
-
Thomas, R.1
|